Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007441.1 Hibiscus syriacus cultivar Beakdansim tig00020298_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 137359
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
Found at i:1668 original size:41 final size:41
Alignment explanation
Indices: 1620--1729 Score: 139
Period size: 41 Copynumber: 2.7 Consensus size: 41
1610 TACATATAAG
* * *
1620 TACTTTAGTGGCATTTTTAAACAAACGTCACCATAGAATCC
1 TACTTTAGTGGCATTTTTAAACAAACGCCACAAAAGAATCC
** * * *
1661 TACTTTAGTGGTGTTTCTAAACAAACGCCGCAAAAGAATCG
1 TACTTTAGTGGCATTTTTAAACAAACGCCACAAAAGAATCC
*
1702 TTCTTTAGTGGCATTTTTAAACAAACGC
1 TACTTTAGTGGCATTTTTAAACAAACGC
1730 TGCAATAGGC
Statistics
Matches: 57, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 57 1.00
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.32
Consensus pattern (41 bp):
TACTTTAGTGGCATTTTTAAACAAACGCCACAAAAGAATCC
Found at i:2820 original size:20 final size:20
Alignment explanation
Indices: 2795--2850 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
2785 GAACCCGAGT
2795 TTGCATTCTCTTTGTAATGA
1 TTGCATTCTCTTTGTAATGA
2815 TTGCATTCTCTTTGTAATGA
1 TTGCATTCTCTTTGTAATGA
* *
2835 ATGCATTCGCTTTGTA
1 TTGCATTCTCTTTGTA
2851 GGTTTAAGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.20, C:0.16, G:0.16, T:0.48
Consensus pattern (20 bp):
TTGCATTCTCTTTGTAATGA
Found at i:3736 original size:33 final size:33
Alignment explanation
Indices: 3647--3725 Score: 149
Period size: 33 Copynumber: 2.4 Consensus size: 33
3637 CCAGGTTGGT
*
3647 TTAGCGGTGTTTTAAGATAAAAATCAGTTTTAA
1 TTAGCGGCGTTTTAAGATAAAAATCAGTTTTAA
3680 TTAGCGGCGTTTTAAGATAAAAATCAGTTTTAA
1 TTAGCGGCGTTTTAAGATAAAAATCAGTTTTAA
3713 TTAGCGGCGTTTT
1 TTAGCGGCGTTTT
3726 TATAATAAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (33 bp):
TTAGCGGCGTTTTAAGATAAAAATCAGTTTTAA
Found at i:7972 original size:60 final size:59
Alignment explanation
Indices: 7904--8037 Score: 144
Period size: 60 Copynumber: 2.3 Consensus size: 59
7894 TGACAAAGCG
* * * * *
7904 TGGATCATGAAGCGCG-CTTTCGCGGGGTTCTGTCTTAGCTGGCACCACGCTGAAAAGGCA
1 TGGATCATGAAGCGCGCCTTT-ACGGGATTCTGTATGAGCTGGCACCAC-ATGAAAAGGCA
* * * * * *
7964 TGGATCATGAGGCGCGCCTTTACGGGATTTTGTATGAGCTGGCGCCACATTAGAAGGCG
1 TGGATCATGAAGCGCGCCTTTACGGGATTCTGTATGAGCTGGCACCACATGAAAAGGCA
8023 TGGATCATGAAGCGC
1 TGGATCATGAAGCGC
8038 CTTCGTGTTG
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
59 21 0.34
60 36 0.59
61 4 0.07
ACGTcount: A:0.21, C:0.22, G:0.33, T:0.24
Consensus pattern (59 bp):
TGGATCATGAAGCGCGCCTTTACGGGATTCTGTATGAGCTGGCACCACATGAAAAGGCA
Found at i:8285 original size:26 final size:25
Alignment explanation
Indices: 8238--8309 Score: 67
Period size: 26 Copynumber: 2.8 Consensus size: 25
8228 AGCTCAATTT
* * *
8238 TTTATTATATTATAATCATTTAATAG
1 TTTATTATTTTATTAT-ATTTTATAG
*
8264 TTTATTATTTTATTATATTTTATTG
1 TTTATTATTTTATTATATTTTATAG
8289 TATTAATT-TTTTATTA-ATTTT
1 T-TT-ATTATTTTATTATATTTT
8310 TGAAGTTATA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
25 13 0.32
26 24 0.60
27 3 0.08
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.65
Consensus pattern (25 bp):
TTTATTATTTTATTATATTTTATAG
Found at i:10507 original size:102 final size:102
Alignment explanation
Indices: 10321--10517 Score: 231
Period size: 102 Copynumber: 1.9 Consensus size: 102
10311 GTCGATATTT
* * * * * * *
10321 AGGTCGAACAAGTTGGTGGTTGAATGTTTTCCCCTTGAACTTGAAGGCATCGTGTCATATGGGTT
1 AGGTCGAACAAGCTCGTAGTTGAATGTTCTCCCCTAGAACTTGAAGGCATCGTGTCAAATGGGTC
*
10386 TTGAACTAAGTGTTGTGTCATAG-GCATCTCTACATTG
66 TTGAACTAAGTGTTATGTCA-AGAGCATCTCTACATTG
* *
10423 AGGTCGAAGAAGCTCGTAGTTGAATG-TCTCCACCTAGAACTTGAAGGCATCGTTTCAAATGGGT
1 AGGTCGAACAAGCTCGTAGTTGAATGTTCTCC-CCTAGAACTTGAAGGCATCGTGTCAAATGGGT
*
10487 ACTT-AA-TAGATTGTTATGTCAAGAGCATCTC
65 -CTTGAACTA-AGTGTTATGTCAAGAGCATCTC
10518 CATATTCATG
Statistics
Matches: 80, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
101 8 0.10
102 70 0.88
103 2 0.03
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (102 bp):
AGGTCGAACAAGCTCGTAGTTGAATGTTCTCCCCTAGAACTTGAAGGCATCGTGTCAAATGGGTC
TTGAACTAAGTGTTATGTCAAGAGCATCTCTACATTG
Found at i:12131 original size:6 final size:6
Alignment explanation
Indices: 11979--12130 Score: 191
Period size: 6 Copynumber: 25.7 Consensus size: 6
11969 TCATAAGAAA
*
11979 AAGAAG AAGAGG AAGAGG AAGAGG AAGAGG AAGAGG AAGAGG AAGAGG
1 AAGAGG AAGAGG AAGAGG AAGAGG AAGAGG AAGAGG AAGAGG AAGAGG
* *
12027 AAGAGG AAGAGG AAGAGG AAGAGG AAGAGG AAGAGG AAGAAG AGGAGG
1 AAGAGG AAGAGG AAGAGG AAGAGG AAGAGG AAGAGG AAGAGG AAGAGG
* * * * * * *
12075 AAGAAG AAGAAG AAGA-G AGGA-G AAGAAG AAGAAG AAGAAG AAGAAG
1 AAGAGG AAGAGG AAGAGG AAGAGG AAGAGG AAGAGG AAGAGG AAGAGG
*
12121 AAGAAG AAGA
1 AAGAGG AAGA
12131 ACCCGTTGCT
Statistics
Matches: 137, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
5 8 0.06
6 129 0.94
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (6 bp):
AAGAGG
Found at i:15657 original size:20 final size:20
Alignment explanation
Indices: 15629--15666 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
15619 AGGGTTTGAG
* *
15629 TATCGATACTGGATGAACAA
1 TATCAATACTAGATGAACAA
15649 TATCAATACTAGATGAAC
1 TATCAATACTAGATGAAC
15667 TGGTATGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (20 bp):
TATCAATACTAGATGAACAA
Found at i:18538 original size:143 final size:143
Alignment explanation
Indices: 18274--18551 Score: 425
Period size: 143 Copynumber: 1.9 Consensus size: 143
18264 ATTTAATCTA
* *
18274 ATCTTTAAAAAATGATGTTCAGACAGACATAAAGGAGTTCTAGTACTATGGGGCTTGACCGCCTG
1 ATCTTTAAAAAATGATGTTCAAACAGACATAAAGGAGCTCTAGTACTATGGGGCTTGACCGCCTG
* * * * *
18339 AGGGGTGATCCTAAAGTGTAAATGGGGACTGGATCTTTAGTCCTAACAAGCCCATTAGAATCCC-
66 AGGGGTAACCCCAAAGTGTAAATGGGGACTAGATCTTTAGCCCTAACAAGCCCATTAGAATCCCA
18403 TCATGTACTTAGG
131 TCATGTACTTAGG
* *
18416 ATCTTTAAAAAAATGATGTTCAAACAGACATAAGGGAGACT-TAGTACTATGGGGCTTGATCGCC
1 ATCTTT-AAAAAATGATGTTCAAACAGACATAAAGGAG-CTCTAGTACTATGGGGCTTGACCGCC
* *
18480 TGAGGGGTAACCCCAAAGTGTAGATGGGGATTAGATCTTTAGCCCTAACAAGCCCATTAGAATCC
64 TGAGGGGTAACCCCAAAGTGTAAATGGGGACTAGATCTTTAGCCCTAACAAGCCCATTAGAATCC
18545 CATCATG
129 CATCATG
18552 GACATAGGCT
Statistics
Matches: 122, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
142 6 0.05
143 110 0.90
144 6 0.05
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (143 bp):
ATCTTTAAAAAATGATGTTCAAACAGACATAAAGGAGCTCTAGTACTATGGGGCTTGACCGCCTG
AGGGGTAACCCCAAAGTGTAAATGGGGACTAGATCTTTAGCCCTAACAAGCCCATTAGAATCCCA
TCATGTACTTAGG
Found at i:20435 original size:21 final size:22
Alignment explanation
Indices: 20411--20456 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
20401 TATTTTAACA
* *
20411 AAAAAATTAAATATTAAG-ATT
1 AAAAAACTAAAAATTAAGAATT
*
20432 AAAATACTAAAAATTAAGAATT
1 AAAAAACTAAAAATTAAGAATT
20454 AAA
1 AAA
20457 GTGATAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.28
Consensus pattern (22 bp):
AAAAAACTAAAAATTAAGAATT
Found at i:20794 original size:23 final size:23
Alignment explanation
Indices: 20768--20815 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
20758 ATAAAGTACA
*
20768 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
** *
20791 ATAATGTAATAGGTAGTGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
20814 AT
1 AT
20816 TTACCTAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.35
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:21267 original size:23 final size:23
Alignment explanation
Indices: 21241--21303 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
21231 ATATAACCAC
21241 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
21264 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
21287 TACCTATTACATCATAT
1 TACCTATTACATTATAT
21304 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:21696 original size:23 final size:23
Alignment explanation
Indices: 21670--21732 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
21660 ATATAACCAC
21670 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
21693 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
21716 TACCTATTACATCATAT
1 TACCTATTACATTATAT
21733 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:22210 original size:39 final size:39
Alignment explanation
Indices: 22156--22241 Score: 145
Period size: 39 Copynumber: 2.2 Consensus size: 39
22146 CAAGTTGTAG
*
22156 ATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTGA
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
* *
22195 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTGG
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
22234 ATTTTGAT
1 ATTTTGAT
22242 GAGCATCGGA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.19, C:0.14, G:0.19, T:0.49
Consensus pattern (39 bp):
ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
Found at i:22850 original size:183 final size:183
Alignment explanation
Indices: 22542--23156 Score: 1113
Period size: 183 Copynumber: 3.4 Consensus size: 183
22532 AATGAAAACA
22542 TATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAT
1 TATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAT
22607 TATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATA
66 TATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATA
22672 TGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACC
131 TGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACC
* * *
22725 TATTCGCTCATACAACCGGTATATTTATACCTGTTATATTACAAAATTATCTATTACATTATAAT
1 TATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAT
22790 TATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATA
66 TATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATA
22855 TGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACC
131 TGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACC
* * *
22908 TATTCGCTCATACAACCGGTATATTTATACCTGTTATATTACAAAATTATCTATTACATTATAAT
1 TATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAT
*
22973 TATGGGTTCCGATGTGTAAATGTAGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATA
66 TATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATA
23038 TGGACATAAAGTACCGACACAATATTAAAAAAGTGTCGATATAGGTTGTAGACC
131 TGGACATAAAGTACCGACACAATATT-AAAAAGTGTCGATATAGGTTGTAGACC
* * * **
23092 TATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTGCAAATTTACCTATTTTATTATAAT
1 TATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAT
23157 ATGTTGAAAG
Statistics
Matches: 419, Mismatches: 12, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
183 335 0.80
184 84 0.20
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (183 bp):
TATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAT
TATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATA
TGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACC
Found at i:24625 original size:3 final size:3
Alignment explanation
Indices: 24617--24688 Score: 54
Period size: 3 Copynumber: 24.0 Consensus size: 3
24607 ACTTGTTTGG
* * * ** * *
24617 ATC ATC ATC TTC ATC ATC ATC GTC ATC ATC TTC ATC GCC AGC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * *
24665 GTC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC
24689 GTCAGCTTCA
Statistics
Matches: 50, Mismatches: 19, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.22, C:0.35, G:0.07, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:24634 original size:12 final size:12
Alignment explanation
Indices: 24621--24700 Score: 85
Period size: 12 Copynumber: 6.9 Consensus size: 12
24611 GTTTGGATCA
*
24621 TCATCTTCATCA
1 TCATCTTCATCG
*
24633 TCATCGTCA---
1 TCATCTTCATCG
24642 TCATCTTCATCG
1 TCATCTTCATCG
* *
24654 CCAGCTTCATCG
1 TCATCTTCATCG
*
24666 TCATCATCATCG
1 TCATCTTCATCG
24678 TCATCTTCATCG
1 TCATCTTCATCG
*
24690 TCAGCTTCATC
1 TCATCTTCATC
24701 TTCTGCGACC
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
9 8 0.14
12 48 0.86
ACGTcount: A:0.20, C:0.35, G:0.09, T:0.36
Consensus pattern (12 bp):
TCATCTTCATCG
Found at i:24663 original size:21 final size:21
Alignment explanation
Indices: 24618--24674 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
24608 CTTGTTTGGA
* *
24618 TCATCATCTTCATCATCATCG
1 TCATCATCTTCATCACCAGCG
* *
24639 TCATCATCTTCATCGCCAGCT
1 TCATCATCTTCATCACCAGCG
* *
24660 TCATCGTCATCATCA
1 TCATCATCTTCATCA
24675 TCGTCATCTT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.23, C:0.35, G:0.07, T:0.35
Consensus pattern (21 bp):
TCATCATCTTCATCACCAGCG
Found at i:24682 original size:36 final size:36
Alignment explanation
Indices: 24630--24700 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
24620 ATCATCTTCA
*
24630 TCATCATCGTCATCATCTTCATCGCCAGCTTCATCG
1 TCATCATCATCATCATCTTCATCGCCAGCTTCATCG
* *
24666 TCATCATCATCGTCATCTTCATCGTCAGCTTCATC
1 TCATCATCATCATCATCTTCATCGCCAGCTTCATC
24701 TTCTGCGACC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.20, C:0.35, G:0.10, T:0.35
Consensus pattern (36 bp):
TCATCATCATCATCATCTTCATCGCCAGCTTCATCG
Found at i:24703 original size:6 final size:6
Alignment explanation
Indices: 24621--24703 Score: 58
Period size: 6 Copynumber: 13.3 Consensus size: 6
24611 GTTTGGATCA
* * * * * *
24621 TCATCT TCATCA TCATCGT CATCATCT TCATCG CCAGCT TCATCG TCATCA
1 TCATCT TCATCT TCATC-T --TCATCT TCATCT TCATCT TCATCT TCATCT
* * *
24672 TCATCG TCATCT TCATCG TCAGCT TCATCT TC
1 TCATCT TCATCT TCATCT TCATCT TCATCT TC
24704 TGCGACCGCT
Statistics
Matches: 58, Mismatches: 16, Indels: 6
0.73 0.20 0.08
Matches are distributed among these distances:
6 52 0.90
8 1 0.02
9 5 0.09
ACGTcount: A:0.19, C:0.35, G:0.08, T:0.37
Consensus pattern (6 bp):
TCATCT
Found at i:26614 original size:194 final size:197
Alignment explanation
Indices: 26161--27230 Score: 1887
Period size: 194 Copynumber: 5.5 Consensus size: 197
26151 TTTAAATTAG
*
26161 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATGAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
26226 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
26291 CGACACTTTTTATATACGGATCGACAC-TTATGGTGCACCCTGTTTTCCATTCATAT-T-TAAAT
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCAT-TCTGTAAAT
* *
26353 TAG
195 AAA
26356 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
*
26421 ATTGTACCGGTTAGATTGAAAAATTACATA-TACATTATACTTTTGGGTTCGATGATGTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
***
26485 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTACACCATTCATAT-T-TAAAT
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCAT-TCTGTAAAT
* *
26548 TAG
195 AAA
26551 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAA-CGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
26615 ATTGTACCGGTTAGATTG-AAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
26679 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGTAAATA
26744 AA
196 AA
26746 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
26811 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
26876 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAT
131 CGACACTTTTTATATATGGATCGACACTTTAT-GGTGCACCCTGTTTTCCATTCATTCTGTAAAT
26941 AAA
195 AAA
26944 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
27009 ATTGTACCGGTTAGATTGAAAAATTACATATT--A-T-TACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
27070 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCT-GTAAAT
27135 AAA
195 AAA
27138 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACAT-AAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
27202 ATTGTACCGGTTAGATTGAAAAATTACAT
66 ATTGTACCGGTTAGATTGAAAAATTACAT
27231 CCTTTTGGCC
Statistics
Matches: 852, Mismatches: 15, Indels: 18
0.96 0.02 0.02
Matches are distributed among these distances:
193 78 0.09
194 289 0.34
195 249 0.29
196 26 0.03
197 78 0.09
198 132 0.15
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (197 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGTAAATA
AA
Found at i:27386 original size:19 final size:19
Alignment explanation
Indices: 27355--27403 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
27345 TTATATTCAC
27355 ATACGAAAA-TATAAATCGT
1 ATAC-AAAATTATAAATCGT
*
27374 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
27393 ATACAAAATTA
1 ATACAAAATTA
27404 ACCCTACATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
18 4 0.14
19 24 0.86
ACGTcount: A:0.55, C:0.10, G:0.04, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:29226 original size:33 final size:32
Alignment explanation
Indices: 29189--29253 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
29179 CATCTTAATA
*
29189 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTC-TTCACCACT
* *
29222 TCACCCCTCAACACCTCTACTTCTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTCACCACT
29254 CCATCTATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 9 0.31
33 20 0.69
ACGTcount: A:0.23, C:0.49, G:0.00, T:0.28
Consensus pattern (32 bp):
TCACCCCTCAACACCCCAACTTCTTCACCACT
Found at i:31592 original size:17 final size:18
Alignment explanation
Indices: 31570--31612 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
31560 ATATATCCGG
31570 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
31587 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
31607 TATCAT
1 TATCAT
31613 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:31630 original size:20 final size:19
Alignment explanation
Indices: 31575--31621 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
31565 TCCGGTATCA
31575 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
31594 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
31615 TTTTACC
1 TTTTACC
31622 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:35536 original size:13 final size:11
Alignment explanation
Indices: 35506--35531 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
35496 GTTATCACAT
35506 ACATAAAAAAA
1 ACATAAAAAAA
35517 ACATAAAAAAA
1 ACATAAAAAAA
35528 ACAT
1 ACAT
35532 TTAAATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.77, C:0.12, G:0.00, T:0.12
Consensus pattern (11 bp):
ACATAAAAAAA
Found at i:40639 original size:20 final size:20
Alignment explanation
Indices: 40592--40662 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
40582 ACTGCTCGTG
*
40592 GGTATCGATACTAAGCTCCCTA
1 GGTATCGATACT-AGC-CTCTA
*
40614 -GTATCGATACTGGCCTCTA
1 GGTATCGATACTAGCCTCTA
* * *
40633 GGTATCGTTACTAACCTCTG
1 GGTATCGATACTAGCCTCTA
40653 GGTATCGATA
1 GGTATCGATA
40663 TCACTAACTT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
19 4 0.10
20 26 0.63
21 11 0.27
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (20 bp):
GGTATCGATACTAGCCTCTA
Found at i:47248 original size:21 final size:21
Alignment explanation
Indices: 47222--47261 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
47212 CAGAACCCCA
*
47222 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
47243 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
47262 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:51141 original size:22 final size:21
Alignment explanation
Indices: 51099--51138 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
51089 GAGTTTGTTT
*
51099 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
51120 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
51139 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:57096 original size:64 final size:63
Alignment explanation
Indices: 57020--57224 Score: 200
Period size: 64 Copynumber: 3.2 Consensus size: 63
57010 TTATATGAAT
*
57020 GTGCATCGATGCA-CTATTTTAA-AATAAAGACATCGAATGCAATTC-ATGCATCGATGCATAAG
1 GTGCATCGATGCACCCA--TTAATAATAAA-ACATCGAATGCAA-TCGATGCATCGATGCATAAG
*
57082 TA
62 GA
* *
57084 GTGCATCGATGCATCCCATTAATAGTGAAACATCGAATGCAATCGATGCATCGATGCATAAGGA
1 GTGCATCGATGCA-CCCATTAATAATAAAACATCGAATGCAATCGATGCATCGATGCATAAGGA
** ** * ** * * * *
57148 GTGCATCGATGCATCCCAACAATAATACTACATCGAATACCTTTGATGCACCGATGCATCAGTA
1 GTGCATCGATGCA-CCCATTAATAATAAAACATCGAATGCAATCGATGCATCGATGCATAAGGA
57212 GTGCATCGATGCA
1 GTGCATCGATGCA
57225 TACCTTCATT
Statistics
Matches: 120, Mismatches: 17, Indels: 8
0.83 0.12 0.06
Matches are distributed among these distances:
63 2 0.02
64 112 0.93
65 4 0.03
66 2 0.02
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.25
Consensus pattern (63 bp):
GTGCATCGATGCACCCATTAATAATAAAACATCGAATGCAATCGATGCATCGATGCATAAGGA
Found at i:57225 original size:64 final size:64
Alignment explanation
Indices: 57049--57225 Score: 214
Period size: 64 Copynumber: 2.8 Consensus size: 64
57039 TAAAATAAAG
* ** *
57049 ACATCGAATGCAATTC-ATGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAGTGAA
1 ACATCGAATACAA-TCGATGCATCGATGCATAAGTAGTGCATCGATGCATCCCAACAATAATGAA
* * *
57113 ACATCGAATGCAATCGATGCATCGATGCATAAGGAGTGCATCGATGCATCCCAACAATAAT-ACT
1 ACATCGAATACAATCGATGCATCGATGCATAAGTAGTGCATCGATGCATCCCAACAATAATGA-A
** * * *
57177 ACATCGAATACCTTTGATGCACCGATGCATCAGTAGTGCATCGATGCAT
1 ACATCGAATACAATCGATGCATCGATGCATAAGTAGTGCATCGATGCAT
57226 ACCTTCATTA
Statistics
Matches: 99, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
63 3 0.03
64 96 0.97
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (64 bp):
ACATCGAATACAATCGATGCATCGATGCATAAGTAGTGCATCGATGCATCCCAACAATAATGAA
Found at i:57551 original size:12 final size:12
Alignment explanation
Indices: 57534--57567 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
57524 ATATATGTTC
57534 ATGTGATATGAT
1 ATGTGATATGAT
57546 ATGTGATATGAT
1 ATGTGATATGAT
57558 ATGTGATATG
1 ATGTGATATG
57568 GCATGTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.26, T:0.41
Consensus pattern (12 bp):
ATGTGATATGAT
Found at i:57573 original size:12 final size:12
Alignment explanation
Indices: 57533--57580 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
57523 TATATATGTT
57533 CATGTGATATGA
1 CATGTGATATGA
*
57545 TATGTGATATGA
1 CATGTGATATGA
* *
57557 TATGTGATATGG
1 CATGTGATATGA
*
57569 CATGTAATATGA
1 CATGTGATATGA
57581 GAACATGATA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.33, C:0.04, G:0.25, T:0.38
Consensus pattern (12 bp):
CATGTGATATGA
Found at i:57573 original size:24 final size:24
Alignment explanation
Indices: 57534--57580 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
57524 ATATATGTTC
* *
57534 ATGTGATATGATATGTGATATGAT
1 ATGTGATATGACATGTAATATGAT
*
57558 ATGTGATATGGCATGTAATATGA
1 ATGTGATATGACATGTAATATGA
57581 GAACATGATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.02, G:0.26, T:0.38
Consensus pattern (24 bp):
ATGTGATATGACATGTAATATGAT
Found at i:57743 original size:15 final size:15
Alignment explanation
Indices: 57725--57756 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
57715 GAGAGTATAA
57725 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
57740 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
57755 TA
1 TA
57757 ATGGTCCTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.16, C:0.19, G:0.31, T:0.34
Consensus pattern (15 bp):
TAGTCCTTCGGGATG
Found at i:62719 original size:64 final size:63
Alignment explanation
Indices: 62650--62872 Score: 195
Period size: 64 Copynumber: 3.5 Consensus size: 63
62640 TTATATGAAT
* *
62650 GTGCATCGATGCATTGGTAGTGCATCGATGCA-CTATTTTAA-AATAAAGACATCGAATGCAATT
1 GTGCATCGATGCATAGGTAGTGCATCGATGCACCCA--TTAATAATAAA-ACATCGAATGCAA-T
62713 C-
62 CG
* * * *
62714 GTGCATCGATGCATAAGTAGTGCATCAATGCATCCCATTAATAGTGAAACATCGAATGCAATCG
1 GTGCATCGATGCATAGGTAGTGCATCGATGCA-CCCATTAATAATAAAACATCGAATGCAATCG
** ** * ** *
62778 GTGCATCGATGCATAAGG-AGTGCATCGATGCATCCCAACAATAATACTACATCGAATACCTTTG
1 GTGCATCGATGCAT-AGGTAGTGCATCGATGCA-CCCATTAATAATAAAACATCGAATGCAATCG
* *
62842 ATGCACCGATGCATCA-GTAGTGCATCGATGC
1 GTGCATCGATGCAT-AGGTAGTGCATCGATGC
62873 CTACCTTCAT
Statistics
Matches: 132, Mismatches: 21, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
63 3 0.02
64 121 0.92
65 6 0.05
66 2 0.02
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (63 bp):
GTGCATCGATGCATAGGTAGTGCATCGATGCACCCATTAATAATAAAACATCGAATGCAATCG
Found at i:63200 original size:12 final size:12
Alignment explanation
Indices: 63183--63229 Score: 76
Period size: 12 Copynumber: 3.9 Consensus size: 12
63173 ATATATGTTC
63183 ATGTGATATGAT
1 ATGTGATATGAT
63195 ATGTGATATGAT
1 ATGTGATATGAT
*
63207 ATGTGATATGAC
1 ATGTGATATGAT
*
63219 ATGTAATATGA
1 ATGTGATATGA
63230 GAACATGATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.36, C:0.02, G:0.23, T:0.38
Consensus pattern (12 bp):
ATGTGATATGAT
Found at i:63397 original size:15 final size:15
Alignment explanation
Indices: 63377--63405 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
63367 GGTATAATAA
63377 TCCTTCGGGATGTAG
1 TCCTTCGGGATGTAG
63392 TCCTTCGGGATGTA
1 TCCTTCGGGATGTA
63406 ATGGTCCTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.31, T:0.34
Consensus pattern (15 bp):
TCCTTCGGGATGTAG
Found at i:68371 original size:12 final size:12
Alignment explanation
Indices: 68356--68383 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
68346 TTGTCCCAAA
68356 ATTTTAAAAAAT
1 ATTTTAAAAAAT
68368 ATTTTAAAAAAT
1 ATTTTAAAAAAT
68380 ATTT
1 ATTT
68384 GATGAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
ATTTTAAAAAAT
Found at i:70389 original size:2 final size:2
Alignment explanation
Indices: 70384--70457 Score: 68
Period size: 2 Copynumber: 39.5 Consensus size: 2
70374 TTTTTTTACA
* * * *
70384 AT AT AT AT -T AT -T AT -T AT AT AT AC AT AT AT AT -T TT TT AG
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
70422 AT AT -T AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
70458 CTTTTTTTAA
Statistics
Matches: 60, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
1 5 0.08
2 55 0.92
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (2 bp):
AT
Found at i:70425 original size:21 final size:23
Alignment explanation
Indices: 70384--70425 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
70374 TTTTTTTACA
*
70384 ATATATATTATTATTATATATAC
1 ATATATATTATTATTAGATATAC
70407 ATATATATT-TT-TTAGATAT
1 ATATATATTATTATTAGATAT
70426 TATTTATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 2 0.11
23 9 0.50
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (23 bp):
ATATATATTATTATTAGATATAC
Found at i:70636 original size:4 final size:4
Alignment explanation
Indices: 70614--70669 Score: 60
Period size: 4 Copynumber: 13.8 Consensus size: 4
70604 TATACTTTTA
* *
70614 TATT TGATT TATA TATT TATT TATT TATT TA-T TATT TAGTT TTTT TATT
1 TATT T-ATT TATT TATT TATT TATT TATT TATT TATT TA-TT TATT TATT
*
70663 TGTT TAT
1 TATT TAT
70670 ATATATTATA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
3 3 0.07
4 33 0.77
5 7 0.16
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.71
Consensus pattern (4 bp):
TATT
Found at i:74116 original size:8 final size:8
Alignment explanation
Indices: 74100--74128 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
74090 TCATGCATCC
74100 TTGCA-TT
1 TTGCATTT
74107 TTGCATTT
1 TTGCATTT
74115 TTGCATTT
1 TTGCATTT
74123 TTGCAT
1 TTGCAT
74129 CTTCATCTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 5 0.24
8 16 0.76
ACGTcount: A:0.14, C:0.14, G:0.14, T:0.59
Consensus pattern (8 bp):
TTGCATTT
Found at i:75302 original size:16 final size:15
Alignment explanation
Indices: 75280--75333 Score: 51
Period size: 15 Copynumber: 3.6 Consensus size: 15
75270 ATAAAAAAAT
75280 AAAAAAAAAGAAGCA
1 AAAAAAAAAGAAGCA
75295 AAAGAAAACAA-AAG-A
1 AAA-AAAA-AAGAAGCA
*
75310 AAAAAGAAAGAA-CA
1 AAAAAAAAAGAAGCA
75324 AAAATAAAAA
1 AAAA-AAAAA
75334 AGAAAAAGGG
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
13 2 0.06
14 10 0.31
15 11 0.34
16 7 0.22
17 2 0.06
ACGTcount: A:0.81, C:0.06, G:0.11, T:0.02
Consensus pattern (15 bp):
AAAAAAAAAGAAGCA
Found at i:75307 original size:20 final size:18
Alignment explanation
Indices: 75263--75339 Score: 68
Period size: 20 Copynumber: 4.1 Consensus size: 18
75253 ATTCAATCAT
*
75263 AACAAAAATAAAAAA-ATA
1 AACAAAAAGAAAAAAGA-A
*
75281 AAAAAAAAGAAGCAAAAGAA
1 AACAAAAAGAA--AAAAGAA
75301 AAC-AAAAGAAAAAAGAAA
1 AACAAAAAGAAAAAAG-AA
*
75319 GAACAAAAATAAAAAAGAA
1 -AACAAAAAGAAAAAAGAA
75338 AA
1 AA
75340 AGGGACAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
17 5 0.10
18 13 0.27
19 12 0.24
20 18 0.37
21 1 0.02
ACGTcount: A:0.82, C:0.05, G:0.09, T:0.04
Consensus pattern (18 bp):
AACAAAAAGAAAAAAGAA
Found at i:75323 original size:19 final size:18
Alignment explanation
Indices: 75273--75340 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 18
75263 AACAAAAATA
*
75273 AAAAAATAAAAA-AAAAG
1 AAAAAAGAAAAACAAAAG
75290 AAGCAAAAG-AAAACAAAAG
1 AA--AAAAGAAAAACAAAAG
*
75309 AAAAAAGAAAGAACAAAAAT
1 AAAAAAGAAA-AAC-AAAAG
75329 AAAAAAGAAAAA
1 AAAAAAGAAAAA
75341 GGGACAAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
17 7 0.16
18 6 0.14
19 16 0.37
20 14 0.33
ACGTcount: A:0.82, C:0.04, G:0.10, T:0.03
Consensus pattern (18 bp):
AAAAAAGAAAAACAAAAG
Found at i:75334 original size:27 final size:27
Alignment explanation
Indices: 75263--75340 Score: 95
Period size: 30 Copynumber: 2.8 Consensus size: 27
75253 ATTCAATCAT
75263 AACAAAAATAAAAAA-ATAAAAAAAAAG
1 AACAAAAATAAAAAAGA-AAAAAAAAAG
* *
75290 AAGCAAAAGAAAACAAAAGAAAAAAGAAAG
1 AA-CAAAA-ATAA-AAAAGAAAAAAAAAAG
75320 AACAAAAATAAAAAAGAAAAA
1 AACAAAAATAAAAAAGAAAAA
75341 GGGACAAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
27 12 0.27
28 8 0.18
29 8 0.18
30 15 0.34
31 1 0.02
ACGTcount: A:0.82, C:0.05, G:0.09, T:0.04
Consensus pattern (27 bp):
AACAAAAATAAAAAAGAAAAAAAAAAG
Found at i:75951 original size:22 final size:22
Alignment explanation
Indices: 75923--75977 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
75913 GCTACCCCAT
75923 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
75945 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
75967 CAAACCTTTGA
1 CAAACCTTTGA
75978 CCAAACATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.36, C:0.27, G:0.13, T:0.24
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:77013 original size:106 final size:106
Alignment explanation
Indices: 76802--78282 Score: 2147
Period size: 106 Copynumber: 14.0 Consensus size: 106
76792 ATATCATGCC
* * * * * *
76802 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAAC-AACAATTTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
76866 AATTTCGGAGCCAATTTCAACTTTACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
76907 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGTTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
76972 AATTTCAGATCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
77013 ACTCCAGACAACACAAGTTCAACTTCACGACAAAGGGACCGCTGGTTGTCAATAAATAACTTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
77078 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
77119 ACTCCAGACAACGCAAGTTCAACTTCACGACGAATGGACCACTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
77184 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
77225 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
77290 AATTTCATAGCCAAATTT-AACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCC-AATTTCAACTTCACAGCGAAGGATATTGG
* * *
77331 ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTTAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
77396 AATTTCAGAGCCAATTTCAACTTCACAACGAATGATTTTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
77437 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
**
77502 AATTTCAGAGCCAATTTCAACTTCACAATGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
77543 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
77608 AATTTTAGAGCCAATTTCAACTTCACAGTGAATGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
77649 ACTCAAGACAATGCAAGTTCAACTTCACGACGAAGGGACTGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
77714 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
77755 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTAGTTGTCAACAAACACCTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
77820 AATTTTAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
77861 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
77926 AATTTCAGAGCCAATTTCAACTTCACATCGTAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
77967 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
** * * *
78032 AATTTCAGAGCCAATTTCAACTTCTTAGCGAATGATCTTGA
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
** * * * * * * *
78073 AC-CCAAGGTAACACAAGCTCATCTTCACGACGAAGGGGCGGCTGATTGTCAAC-AA-AA-TT-T
1 ACTCC-AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCC
* *
78133 C-A-TTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
78173 ACTCGAGACAACACAAGTTCAACTTCA-GAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACG-ACGAAGGGACCGCTGGTTGTCAACAAACAACTTCC
** * *
78237 CGGTTCCAGAGCCAATTTCAACTTCAC-GACGGAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGG
78279 ACTC
1 ACTC
78283 AGAACAATGC
Statistics
Matches: 1244, Mismatches: 119, Indels: 25
0.90 0.09 0.02
Matches are distributed among these distances:
99 1 0.00
100 73 0.06
101 4 0.00
102 3 0.00
103 4 0.00
104 3 0.00
105 55 0.04
106 1096 0.88
107 5 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.24
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:79045 original size:37 final size:37
Alignment explanation
Indices: 78955--79059 Score: 129
Period size: 37 Copynumber: 2.8 Consensus size: 37
78945 CCTTTTCGTC
*
78955 CTACTAGGATTCAAACTCCTAAAAATATGATAAAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
* * * *
78992 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
* * * *
79029 CTACTATGCTTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
79060 CCACAAGCAC
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
Found at i:79594 original size:34 final size:31
Alignment explanation
Indices: 79532--79594 Score: 81
Period size: 34 Copynumber: 1.9 Consensus size: 31
79522 TTTACAATAT
*
79532 ATATTATTATTATAATACATATATTTTTTAG
1 ATATTATTATTATAATACATATACTTTTTAG
*
79563 ATATTATTTATATATATATATATATACTTTTT
1 ATATTA-TTAT-TATA-ATACATATACTTTTT
79595 TTTAAATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 6 0.22
32 4 0.15
33 4 0.15
34 13 0.48
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (31 bp):
ATATTATTATTATAATACATATACTTTTTAG
Found at i:79774 original size:26 final size:26
Alignment explanation
Indices: 79739--79797 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
79729 TATGTATACT
*
79739 TTTATATTTGATTTAT-ATATTATTTA
1 TTTATTTTTG-TTTATGATATTATTTA
* * *
79765 TTTATTTTTGTTTTTGATTTTTTTTA
1 TTTATTTTTGTTTATGATATTATTTA
79791 TTTATTT
1 TTTATTT
79798 ATATTATATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 4 0.14
26 24 0.86
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.75
Consensus pattern (26 bp):
TTTATTTTTGTTTATGATATTATTTA
Found at i:79903 original size:21 final size:21
Alignment explanation
Indices: 79865--79904 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
79855 TTTACTCATT
79865 TTTATATATATATATATTTCA
1 TTTATATATATATATATTTCA
* * *
79886 TTTATTTATTTATTTATTT
1 TTTATATATATATATATTT
79905 TTCCTTTTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTATATATATATATATTTCA
Found at i:86290 original size:20 final size:20
Alignment explanation
Indices: 86265--86302 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
86255 GCGGTGGATG
*
86265 GTGGACGGCGAACGGTGACA
1 GTGGACAGCGAACGGTGACA
86285 GTGGACAGCGAACGGTGA
1 GTGGACAGCGAACGGTGA
86303 TAACGGTGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.18, G:0.45, T:0.11
Consensus pattern (20 bp):
GTGGACAGCGAACGGTGACA
Found at i:90226 original size:29 final size:30
Alignment explanation
Indices: 90177--90233 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
90167 TGACGACGTT
*
90177 TATAATGTTAGATATTAGAAAAAGTTAAAA
1 TATAATGTTAGATAATAGAAAAAGTTAAAA
*
90207 TATAAT-TTAGATACAT-GAAAAATTTAA
1 TATAATGTTAGATA-ATAGAAAAAGTTAA
90234 TATAGTTTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 17 0.71
30 7 0.29
ACGTcount: A:0.53, C:0.02, G:0.11, T:0.35
Consensus pattern (30 bp):
TATAATGTTAGATAATAGAAAAAGTTAAAA
Found at i:92466 original size:22 final size:22
Alignment explanation
Indices: 92428--92490 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
92418 GAACAGTGAT
*
92428 GGAATCGGT-TCCTGTAGCAGG
1 GGAATCGGTACCCTGTAGCAGG
92449 GGAATCGGTACCCTGTAGCAGG
1 GGAATCGGTACCCTGTAGCAGG
* * *
92471 AGAATCGGCACCTTGTAGCA
1 GGAATCGGTACCCTGTAGCA
92491 TTCTGGAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 9 0.24
22 28 0.76
ACGTcount: A:0.24, C:0.22, G:0.33, T:0.21
Consensus pattern (22 bp):
GGAATCGGTACCCTGTAGCAGG
Found at i:92541 original size:12 final size:12
Alignment explanation
Indices: 92522--92560 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
92512 GGTAATGTTC
92522 ACTGCTACAGTA
1 ACTGCTACAGTA
*
92534 ATTGCTACAGTA
1 ACTGCTACAGTA
*
92546 ACTACTACAGTA
1 ACTGCTACAGTA
92558 ACT
1 ACT
92561 TCCGAAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (12 bp):
ACTGCTACAGTA
Found at i:92633 original size:46 final size:46
Alignment explanation
Indices: 92576--92693 Score: 150
Period size: 46 Copynumber: 2.6 Consensus size: 46
92566 AAAATACTTA
* *
92576 TTAATCTCATAAGCTCGTAAGTTTATTTTACCAATATACTTACCAT
1 TTAATCCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCAT
* *
92622 TTAATCCCATAAGCTCGTAAGCTTATTTTATCAATATACTTGCCA-
1 TTAATCCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCAT
* * * *
92667 TT-ATTCCGTAAGCTCATAAACTTATTT
1 TTAATCCCATAAGCTCGTAAGCTTATTT
92694 GCATGGTTAC
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 21 0.33
45 2 0.03
46 41 0.64
ACGTcount: A:0.31, C:0.20, G:0.08, T:0.41
Consensus pattern (46 bp):
TTAATCCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCAT
Found at i:92854 original size:40 final size:40
Alignment explanation
Indices: 92780--92855 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
92770 AGTCAAATGT
* * *
92780 TGCACCGAAGTGCTGAGGTCGAGCTTTGCTCACCTAATAA
1 TGCACCGAAGTGCTGAGGTCGAGATTTACCCACCTAATAA
* *
92820 TGCACCGTAGTGCTGAGGTCGGGATTTACCCACCTA
1 TGCACCGAAGTGCTGAGGTCGAGATTTACCCACCTA
92856 GTACACCGTA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.22, C:0.26, G:0.26, T:0.25
Consensus pattern (40 bp):
TGCACCGAAGTGCTGAGGTCGAGATTTACCCACCTAATAA
Found at i:93113 original size:30 final size:30
Alignment explanation
Indices: 93079--93142 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 30
93069 AACCCATCAA
* *
93079 TTTTCCAAAATTTACAAATTGATCCCCAAC
1 TTTTCCAAAAATTACAAAATGATCCCCAAC
*
93109 TTTT-CAAAAATTACAAAATGATCCCCAAT
1 TTTTCCAAAAATTACAAAATGATCCCCAAC
93138 TTTTC
1 TTTTC
93143 TAAAGCTTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 26 0.87
30 4 0.13
ACGTcount: A:0.38, C:0.23, G:0.03, T:0.36
Consensus pattern (30 bp):
TTTTCCAAAAATTACAAAATGATCCCCAAC
Found at i:94900 original size:86 final size:86
Alignment explanation
Indices: 94755--94922 Score: 327
Period size: 86 Copynumber: 2.0 Consensus size: 86
94745 CACACCGTAT
*
94755 GAGCATCTAGATTCCCACCCTATCCCAAAACATATGTATAAAAACAACTCCTAAACTAAATTAAA
1 GAGCATCTAGATTCCCACCCTATCCCAAAACAAATGTATAAAAACAACTCCTAAACTAAATTAAA
94820 TAATCATCCAGGCTGCTGCTA
66 TAATCATCCAGGCTGCTGCTA
94841 GAGCATCTAGATTCCCACCCTATCCCAAAACAAATGTATAAAAACAACTCCTAAACTAAATTAAA
1 GAGCATCTAGATTCCCACCCTATCCCAAAACAAATGTATAAAAACAACTCCTAAACTAAATTAAA
94906 TAATCATCCAGGCTGCT
66 TAATCATCCAGGCTGCT
94923 AGCATTTTAT
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
86 81 1.00
ACGTcount: A:0.40, C:0.27, G:0.09, T:0.24
Consensus pattern (86 bp):
GAGCATCTAGATTCCCACCCTATCCCAAAACAAATGTATAAAAACAACTCCTAAACTAAATTAAA
TAATCATCCAGGCTGCTGCTA
Found at i:99515 original size:53 final size:53
Alignment explanation
Indices: 99453--99658 Score: 299
Period size: 53 Copynumber: 3.9 Consensus size: 53
99443 TTCAACCAGT
*
99453 GGGTTCGCTCCCTCTTGCTTCAAGGAGTAGAACTCGAACAATCTTCTGCTTAC
1 GGGTTCACTCCCTCTTGCTTCAAGGAGTAGAACTCGAACAATCTTCTGCTTAC
* * * * * * *
99506 GGGTTCGCTCACTCTTGCTTCAAGGAATATAACTC-AAAATATCTTCTTCCTAC
1 GGGTTCACTCCCTCTTGCTTCAAGGAGTAGAACTCGAACA-ATCTTCTGCTTAC
*
99559 GGGTTCACTCTCTCTTGCTTCAAGGAGTAGAACTCGAACAATCTTCTG-TCTAC
1 GGGTTCACTCCCTCTTGCTTCAAGGAGTAGAACTCGAACAATCTTCTGCT-TAC
99612 GGGTTCACTCCCTCTTGCTTCAAGGAGTAGAACTCGAACAATCTTCT
1 GGGTTCACTCCCTCTTGCTTCAAGGAGTAGAACTCGAACAATCTTCT
99659 AGTGTGATTC
Statistics
Matches: 136, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
52 3 0.02
53 130 0.96
54 3 0.02
ACGTcount: A:0.23, C:0.27, G:0.18, T:0.32
Consensus pattern (53 bp):
GGGTTCACTCCCTCTTGCTTCAAGGAGTAGAACTCGAACAATCTTCTGCTTAC
Found at i:100109 original size:42 final size:42
Alignment explanation
Indices: 100062--100239 Score: 138
Period size: 42 Copynumber: 4.3 Consensus size: 42
100052 TATCATCTCA
*
100062 CTCGAAAGACTTACAAATGACCCGAAGGATTTCATCATCATG
1 CTCGAAAGACTTACAAATGACCCGAATGATTTCATCATCATG
* * * *
100104 CTCGAAAGACTTAC---TGA--TGAATTTACTTCA-CTACTCTTCG
1 CTCGAAAGACTTACAAATGACCCGAA-TGATTTCATC-A-TCAT-G
* * * * *
100144 GT-G-AAGGCTTACAAATTACCCGAATGAATTAATCATCATG
1 CTCGAAAGACTTACAAATGACCCGAATGATTTCATCATCATG
** * *
100184 CTCGAAAGACTTACTGATGGCCCGAAAGATTTCATCATCATG
1 CTCGAAAGACTTACAAATGACCCGAATGATTTCATCATCATG
100226 CTCGAAAGACTTAC
1 CTCGAAAGACTTAC
100240 TGATGGCACT
Statistics
Matches: 102, Mismatches: 22, Indels: 24
0.69 0.15 0.16
Matches are distributed among these distances:
37 4 0.04
38 14 0.14
39 7 0.07
40 4 0.04
41 6 0.06
42 63 0.62
43 4 0.04
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (42 bp):
CTCGAAAGACTTACAAATGACCCGAATGATTTCATCATCATG
Found at i:100211 original size:20 final size:20
Alignment explanation
Indices: 100186--100246 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
100176 TCATCATGCT
100186 CGAAAGACTTACTGATGGCC
1 CGAAAGACTTACTGATGGCC
* * *
100206 CGAAAGATTTCATCATCAT-GCT
1 CGAAAGACTT-A-C-TGATGGCC
100228 CGAAAGACTTACTGATGGC
1 CGAAAGACTTACTGATGGC
100247 ACTTACTGAT
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
19 3 0.09
20 12 0.38
21 2 0.06
22 12 0.38
23 3 0.09
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (20 bp):
CGAAAGACTTACTGATGGCC
Found at i:100252 original size:13 final size:13
Alignment explanation
Indices: 100234--100258 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
100224 TGCTCGAAAG
100234 ACTTACTGATGGC
1 ACTTACTGATGGC
100247 ACTTACTGATGG
1 ACTTACTGATGG
100259 GTTTGCTTCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (13 bp):
ACTTACTGATGGC
Found at i:100515 original size:41 final size:41
Alignment explanation
Indices: 100460--100566 Score: 133
Period size: 42 Copynumber: 2.6 Consensus size: 41
100450 CCCGAAGGTT
* * * *
100460 TTACGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGC
1 TTACAGATGGCCCGAAGGACTTATCATCATGCTCGAAAGAC
* * *
100501 TTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGAC
1 TTACAGATGGCCCGAAGGACTT-ATCATCATGCTCGAAAGAC
*
100543 TTACTGATGGCCCGAAGGACTTAT
1 TTACAGATGGCCCGAAGGACTTAT
100567 AAATTATGAA
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
41 20 0.37
42 34 0.63
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.25
Consensus pattern (41 bp):
TTACAGATGGCCCGAAGGACTTATCATCATGCTCGAAAGAC
Found at i:100532 original size:214 final size:215
Alignment explanation
Indices: 100282--100725 Score: 710
Period size: 214 Copynumber: 2.1 Consensus size: 215
100272 CTCTTCGGTG
* * *
100282 AAGGCTTACAAATTACCCGAAAGATTTAATCATCATGCTCGAAAGACTTACTGATGGACCGAAGG
1 AAGGCTTACAGATGACCCGAAAGATTTAAGCATCATGCTCGAAAGACTTACTGATGGACCGAAGG
* * * *
100347 ACTTATAAATTGTTAAATTTTGAAAATCGCATTATTTGTTTTCAAAAATTTCATCTTCTCAAAAC
66 ACTTATAAATTATGAAATTTTGAAAATCGCATTATTCGTTTTCAAAAATTCCATCTTCTCAAAAC
* * * *
100412 ATC-GTTTTTCATTTTCAAATTCTTTTGAAAACATCTTACCCGAAGGTTTTACGGATGGCCCGAA
131 ATCAGTTTTTCATTTTCAAATTCATGTAAAAACATCCTACCCGAAGGTTTTACGGATGGCCCGAA
100476 GGACTTATCATCTTGCTCTA
196 GGACTTATCATCTTGCTCTA
* *
100496 AAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
1 AAGGCTTACAGATGACCCGAAAGATTTAAGCATCATGCTCGAAAGACTTACTGATGGACCGAAGG
* *
100561 ACTTATAAATTATGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAAC
66 ACTTATAAATTATGAAATTTTGAAAATCGCATTATTCGTTTTCAAAAATTCCATCTTCTCAAAAC
* *
100626 ATCATTTTTTTCATTTTCAAATTCATGTAAAAACATCCTACCCGAAGGTTTTATGGATGGCCCGA
131 ATCA-GTTTTTCATTTTCAAATTCATGTAAAAACATCCTACCCGAAGGTTTTACGGATGGCCCGA
100691 AGGACTTATCATCTTGCTCTA
195 AGGACTTATCATCTTGCTCTA
*
100712 AAGGCTTATAGATG
1 AAGGCTTACAGATG
100726 GATTTGCTTC
Statistics
Matches: 210, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
214 122 0.58
216 88 0.42
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (215 bp):
AAGGCTTACAGATGACCCGAAAGATTTAAGCATCATGCTCGAAAGACTTACTGATGGACCGAAGG
ACTTATAAATTATGAAATTTTGAAAATCGCATTATTCGTTTTCAAAAATTCCATCTTCTCAAAAC
ATCAGTTTTTCATTTTCAAATTCATGTAAAAACATCCTACCCGAAGGTTTTACGGATGGCCCGAA
GGACTTATCATCTTGCTCTA
Found at i:100818 original size:39 final size:37
Alignment explanation
Indices: 100712--100825 Score: 126
Period size: 34 Copynumber: 3.1 Consensus size: 37
100702 TCTTGCTCTA
* * **
100712 AAGGCTTATAGATGGATTTGCTTCACCACTCTTCCGTG
1 AAGGCTTA-AAATGGATTTGCTTCACTACTCTTTGGTG
*
100750 AAGGCTTAAGAT-GA--TGCTTCACTACTCTTTGGTG
1 AAGGCTTAAAATGGATTTGCTTCACTACTCTTTGGTG
*
100784 AAGGCTTACAAAATGGATTTGCTTTACTACTCTTTGGTG
1 AAGGCTT--AAAATGGATTTGCTTCACTACTCTTTGGTG
100823 AAG
1 AAG
100826 ACTTGACTTT
Statistics
Matches: 66, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
34 24 0.36
36 6 0.09
37 6 0.09
38 8 0.12
39 22 0.33
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (37 bp):
AAGGCTTAAAATGGATTTGCTTCACTACTCTTTGGTG
Found at i:111791 original size:72 final size:72
Alignment explanation
Indices: 111671--111807 Score: 161
Period size: 72 Copynumber: 1.9 Consensus size: 72
111661 CTTATAAATT
* * ***
111671 TAGGATTTTAGTTTGATTATTTTATTTATTTTTATTTATTTAGGAATTA-GTTATTTACTTAGAA
1 TAGGATTTTAGTTTGATTATATTATCTATTTTTATTTAGGAAGGAATTATGTTATTTACTTAGAA
111735 CTCTAGG
66 CTCTAGG
** * *
111742 TAGGATTTTCAGTTTGATTATATTA-CTATCTTTTATTTAGGAATTAATTATTTTATTTTCTTAG
1 TAGGATTTT-AGTTTGATTATATTATCTAT-TTTTATTTAGGAAGGAATTATGTTATTTACTTAG
111806 AA
64 AA
111808 TTCTCGAATT
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
71 12 0.22
72 29 0.54
73 13 0.24
ACGTcount: A:0.28, C:0.05, G:0.12, T:0.55
Consensus pattern (72 bp):
TAGGATTTTAGTTTGATTATATTATCTATTTTTATTTAGGAAGGAATTATGTTATTTACTTAGAA
CTCTAGG
Found at i:111927 original size:13 final size:13
Alignment explanation
Indices: 111911--111945 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
111901 TCATCTCCAT
*
111911 TTTTCTTTCTTTA
1 TTTTCTTTCATTA
111924 TTTTCTTTCATTA
1 TTTTCTTTCATTA
111937 TTTTCTTTC
1 TTTTCTTTC
111946 CACAATTCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.09, C:0.17, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTTCTTTCATTA
Found at i:112587 original size:14 final size:14
Alignment explanation
Indices: 112545--112597 Score: 61
Period size: 14 Copynumber: 3.7 Consensus size: 14
112535 TTTATTTACT
*
112545 TTATTTATTTTCTCA
1 TTATTTATTTT-TTA
* *
112560 TTATTTCTTCTTTA
1 TTATTTATTTTTTA
*
112574 GTATTTATTTTTTA
1 TTATTTATTTTTTA
112588 TTATTTATTT
1 TTATTTATTT
112598 ACTTTCATTA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
14 22 0.71
15 9 0.29
ACGTcount: A:0.19, C:0.08, G:0.02, T:0.72
Consensus pattern (14 bp):
TTATTTATTTTTTA
Found at i:115450 original size:44 final size:44
Alignment explanation
Indices: 115348--115450 Score: 116
Period size: 44 Copynumber: 2.3 Consensus size: 44
115338 TATATATATT
* * * *
115348 TATTAACGATAGACATAACAGATAAAGAGTTGTATATCTGTGTA
1 TATTAACAATAGACATAACAGACAAAGAGTCGTATATATGTGTA
* ** *
115392 TATTAACAACAGACATAATGGACAAAGAGTCGTGTATATGTGTA
1 TATTAACAATAGACATAACAGACAAAGAGTCGTATATATGTGTA
* *
115436 TATTCATAATAGACA
1 TATTAACAATAGACA
115451 CAAAGGGCCA
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.30
Consensus pattern (44 bp):
TATTAACAATAGACATAACAGACAAAGAGTCGTATATATGTGTA
Found at i:124931 original size:29 final size:26
Alignment explanation
Indices: 124876--124927 Score: 86
Period size: 27 Copynumber: 2.0 Consensus size: 26
124866 TTTTTTTCTA
124876 TTCTCCCCCCTTCGAATGCTTCTCTG
1 TTCTCCCCCCTTCGAATGCTTCTCTG
*
124902 TTCTCTCCCCCTTTGAATGCTTCTCT
1 TTCTC-CCCCCTTCGAATGCTTCTCT
124928 CTGTCTCCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.08, C:0.40, G:0.10, T:0.42
Consensus pattern (26 bp):
TTCTCCCCCCTTCGAATGCTTCTCTG
Found at i:124934 original size:28 final size:26
Alignment explanation
Indices: 124876--124935 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 26
124866 TTTTTTTCTA
*
124876 TTCTCCCCCCTTCGAATGCTTCTCTG
1 TTCTCCCCCCTTCGAATGCTTCTCTC
*
124902 TTCTCTCCCCCTTTGAATGCTTCTCTC
1 TTCTC-CCCCCTTCGAATGCTTCTCTC
124929 TGTCTCC
1 T-TCTCC
124936 TTATCTATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
26 5 0.17
27 21 0.70
28 4 0.13
ACGTcount: A:0.07, C:0.42, G:0.10, T:0.42
Consensus pattern (26 bp):
TTCTCCCCCCTTCGAATGCTTCTCTC
Found at i:127211 original size:21 final size:19
Alignment explanation
Indices: 127167--127211 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
127157 GATATAACTT
*
127167 TATAATATTTGTATAATTA
1 TATAATATATGTATAATTA
*
127186 CATAATATATGTTATAATGTA
1 TATAATATATG-TATAAT-TA
127207 TATAA
1 TATAA
127212 AATACTACCT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 9 0.43
20 6 0.29
21 6 0.29
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (19 bp):
TATAATATATGTATAATTA
Found at i:136722 original size:18 final size:18
Alignment explanation
Indices: 136686--136724 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
136676 AAAAGCAAAA
*
136686 ATGATCAGGCATCCGACG
1 ATGATCAGGCATCCAACG
136704 ATGATCAGG-ATCCAAACG
1 ATGATCAGGCATCC-AACG
136722 ATG
1 ATG
136725 TGCGCGGAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.33, C:0.23, G:0.26, T:0.18
Consensus pattern (18 bp):
ATGATCAGGCATCCAACG
Done.